Mani Arumugam
- 2015
- Published
Gut microbiome development along the colorectal adenoma-carcinoma sequence
Feng, Q., Liang, S., Jia, H., Stadlmayr, A., Tang, L., Lan, Z., Zhang, D., Xia, H., Xu, X., Jie, Z., Su, L., Li, X., Li, X., Li, J., Xiao, L., Huber-Schönauer, U., Niederseer, D., Xu, X., Al-Aama, J. Y., Yang, H. & 6 others, , 2015, In: Nature Communications. 6, 13 p., 6528.Research output: Contribution to journal › Journal article › Research › peer-review
- 2014
- Published
Interplay between FGF21 and insulin action in the liver regulates metabolism
Emanuelli, Brice, Vienberg, S. G., Smyth, G., Cheng, C., Stanford, K. I., Arumugam, Mani, Michael, M. D., Adams, A. C., Kharitonenkov, A. & Kahn, C. R., 3 Feb 2014, In: The Journal of Clinical Investigation. 124, 2, p. 515-27 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
An integrated catalog of reference genes in the human gut microbiome
Li, J., Jia, H., Cai, X., Zhong, H., Feng, Q., Sunagawa, S., Arumugam, M., Kultima, J. R., Prifti, E., Nielsen, T., Juncker, A., Manichanh, C., Chen, B., Zhang, W., Levenez, F., Wang, J., Xu, X., Xiao, L., Liang, S., Zhang, D. & 17 others, , 2014, In: Nature Biotechnology. 32, 8, p. 834-845 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes
Nielsen, H. B., Almeida, M., Juncker, A., Rasmussen, S., Li, J., Sunagawa, S., Plichta, D. R., Gautier, L., Pedersen, A. G., Le Chatelier, E., Pelletier, E., Bonde, I., Nielsen, T., Manichanh, C., Arumugam, M., Batto, J-M., dos Santos, M. B. Q., Blom, N., Borruel, N., Burgdorf, K. S. & 31 others, , 2014, In: Nature Biotechnology. 32, 8, p. 822–828 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2013
- Published
Country-specific antibiotic use practices impact the human gut resistome
Forslund, K., Sunagawa, S., Kultima, J. R., Mende, D. R., Arumugam, Mani, Typas, A. & Bork, P., Jul 2013, In: Genome Research. 23, 7, p. 1163-9 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
Consistent mutational paths predict eukaryotic thermostability
van Noort, V., Bradatsch, B., Arumugam, Mani, Amlacher, S., Bange, G., Creevey, C., Falk, S., Mende, D. R., Sinning, I., Hurt, E. & Bork, P., 2013, In: B M C Evolutionary Biology. 13, p. 7Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Genomic variation landscape of the human gut microbiome
Schloissnig, S., Arumugam, Mani, Sunagawa, S., Mitreva, M., Tap, J., Zhu, A., Waller, A., Mende, D. R., Kultima, J. R., Martin, J., Kota, K., Sunyaev, S. R., Weinstock, G. M. & Bork, P., 2013, In: Nature. 493, 7430, p. 45-50 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Metagenomic species profiling using universal phylogenetic marker genes
Sunagawa, S., Mende, D. R., Zeller, G., Izquierdo-Carrasco, F., Berger, S. A., Kultima, J. R., Coelho, L. P., Arumugam, M., Tap, J., Nielsen, H. B., Rasmussen, S., Brunak, S., Pedersen, O. B., Guarner, F., de Vos, W. M., Wang, J., Li, J., Doré, J., Ehrlich, S. D., Stamatakis, A. & 1 others, , 2013, In: Nature Methods. 10, 12, p. 1196-1199 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Richness of human gut microbiome correlates with metabolic markers
Le Chatelier, E., Nielsen, T., Qin, J., Prifti, E., Hildebrand, F., Falony, G., Almeida, M., Arumugam, M., Batto, J-M., Kennedy, S., Leonard, P., Li, J., Burgdorf, K. S., Grarup, N., Jørgensen, T., Brandslund, I., Nielsen, H. B., Juncker, A., dos Santos, M. B. Q., Levenez, F. & 62 others, , 2013, In: Nature. 500, 7464, p. 541-546 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2012
- Published
Assessment of metagenomic assembly using simulated next generation sequencing data
Mende, D. R., Waller, A. S., Sunagawa, S., Järvelin, A. I., Chan, M. M., Arumugam, Mani, Raes, J. & Bork, P., 2012, In: P L o S One. 7, 2, p. e31386Research output: Contribution to journal › Journal article › Research › peer-review
MOCAT: a metagenomics assembly and gene prediction toolkit
Kultima, J. R., Sunagawa, S., Li, J., Chen, W., Chen, H., Mende, D. R., Arumugam, Mani, Pan, Q., Liu, B., Qin, J., Wang, J. & Bork, P., 2012, In: PLOS ONE. 7, 10, p. e47656Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The human small intestinal microbiota is driven by rapid uptake and conversion of simple carbohydrates
Zoetendal, E. G., Raes, J., van den Bogert, B., Arumugam, Mani, Booijink, C. C. G. M., Troost, F. J., Bork, P., Wels, M., de Vos, W. M. & Kleerebezem, M., 2012, In: I S M E Journal. 6, 7, p. 1415-26 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2011
- Published
Enterotypes of the human gut microbiome: [Plus]Corrigendum [Plus]Addendum
Arumugam, M., Raes, J., Pelletier, E., Le Paslier, D., Yamada, T., Mende, D. R., Fernandes, G. R., Tap, J., Bruls, T., Batto, J-M., dos Santos, M. B. Q., Borruel, N., Casellas, F., Fernandez, L., Gautier, L., Hansen, T., Hattori, M., Hayashi, T., Kleerebezem, M., Kurokawa, K. & 31 others, , 2011, In: Nature. 473, 7346, p. 174-180 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Insight into structure and assembly of the nuclear pore complex by utilizing the genome of a eukaryotic thermophile
Amlacher, S., Sarges, P., Flemming, D., van Noort, V., Kunze, R., Devos, D. P., Arumugam, Mani, Bork, P. & Hurt, E., 2011, In: Cell. 146, 2, p. 277-89 13 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications
Yilmaz, P., Kottmann, R., Field, D., Knight, R., Cole, J. R., Amaral-Zettler, L., Gilbert, J. A., Karsch-Mizrachi, I., Johnston, A., Cochrane, G., Vaughan, R., Hunter, C., Park, J., Morrison, N., Rocca-Serra, P., Sterk, P., Arumugam, M., Bailey, M., Baumgartner, L., Birren, B. W. & 78 others, , 2011, In: Nature Biotechnology. 29, 5, p. 415-20 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2010
- Published
SmashCell: A software framework for the analysis of single-cell amplified genome sequences.
Harrington, E. D., Arumugam, Mani, Raes, J., Bork, P. & Relman, D. A., Oct 2010, In: Bioinformatics. 26, 23, p. 2979-2980 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
SmashCommunity: A metagenomic annotation and analysis tool.
Arumugam, Mani, Harrington, E. D., Foerstner, K. U., Raes, J. & Bork, P., Oct 2010, In: Bioinformatics. 26, 23, p. 2977-2978 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
A human gut microbial gene catalogue established by metagenomic sequencing
MetaHIT Consortium, M. C., 2010, In: Nature. 464, 7285, p. 59-65 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2009
- Published
Transcriptome complexity in a genome-reduced bacterium.
Güell, M., van Noort, V., Yus, E., Chen, W., Leigh-Bell, J., Michalodimitrakis, K., Yamada, T., Arumugam, Mani, Doerks, T., Kühner, S., Rode, M., Suyama, M., Schmidt, S., Gavin, A., Bork, P. & Serrano, L., Nov 2009, In: Science. 326, 5957, p. 1268-1271 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Pairagon: a highly accurate, HMM-based cDNA-to-genome aligner.
Lu, D. V., Brown, R. H., Arumugam, Mani & Brent, M. R., Jul 2009, In: Bioinformatics. 25, 13, p. 1587-1593 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2007
- Published
The Treeterbi and Parallel Treeterbi algorithms: efficient, optimal decoding for ordinary, generalized and pair HMMs.
Keibler, E., Arumugam, Mani & Brent, M. R., Mar 2007, In: Bioinformatics. 23, 5, p. 545-554 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2006
- Published
Molecular properties of adult mouse gastric and intestinal epithelial progenitors in their niches
Giannakis, M., Stappenbeck, T. S., Mills, J. C., Leip, D. G., Lovett, M., Clifton, S. W., Ippolito, J. E., Glasscock, J. I., Arumugam, Mani, Brent, M. R. & Gordon, J. I., 2006, In: Journal of Biological Chemistry. 281, 16, p. 11292-300 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Pairagon+N-SCAN_EST: a model-based gene annotation pipeline
Arumugam, Mani, Wei, C., Brown, R. H. & Brent, M. R., 2006, In: Genome Biology (Online Edition). 7 Suppl 1, p. S5.1-10Research output: Contribution to journal › Journal article › Research › peer-review
- 2005
- Published
Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions
Wei, C., Lamesch, P., Arumugam, Mani, Rosenberg, J., Hu, P., Vidal, M. & Brent, M. R., 2005, In: Genome Research. 15, 4, p. 577-82 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2004
- Published
EMPRR: A high-dimensional EM-based piecewise regression algorithm
Arumugam, Mani & Scott, S. D., 2004, Proceedings of the 2004 International Conference on Machine Learning and Applications, ICMLA '04. Kantardzic, M., Nasraoui, O. & Milanova, M. (eds.). p. 264-271 8 p. (Proceedings of the 2004 International Conference on Machine Learning and Applications, ICMLA '04).Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review
ID: 41056735
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A human gut microbial gene catalogue established by metagenomic sequencing
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Circulating microbiome in blood of different circulatory compartments
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An Improved Method for High Quality Metagenomics DNA Extraction from Human and Environmental Samples
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